Package: BAMBI 2.3.7

BAMBI: Bivariate Angular Mixture Models

Fit (using Bayesian methods) and simulate mixtures of univariate and bivariate angular distributions. Chakraborty and Wong (2021) <doi:10.18637/jss.v099.i11>.

Authors:Saptarshi Chakraborty [aut, cre], Samuel W.K. Wong [aut], Florence Bockting [ctb]

BAMBI_2.3.7.tar.gz
BAMBI_2.3.7.zip(r-4.7-x86_64)BAMBI_2.3.7.zip(r-4.7-arm64)BAMBI_2.3.7.zip(r-4.6-x86_64)BAMBI_2.3.7.zip(r-4.6-arm64)BAMBI_2.3.7.zip(r-4.5-x86_64)
BAMBI_2.3.7.tgz(r-4.6-x86_64)BAMBI_2.3.7.tgz(r-4.6-arm64)BAMBI_2.3.7.tgz(r-4.5-x86_64)BAMBI_2.3.7.tgz(r-4.5-arm64)
BAMBI_2.3.7.tar.gz(r-4.7-arm64)BAMBI_2.3.7.tar.gz(r-4.7-x86_64)BAMBI_2.3.7.tar.gz(r-4.6-arm64)BAMBI_2.3.7.tar.gz(r-4.6-x86_64)
BAMBI_2.3.7.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
BAMBI/json (API)

# Install 'BAMBI' in R:

install.packages('BAMBI', repos = c('https://c7rishi.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/c7rishi/bambi/issues

Uses libs:

c++– GNU Standard C++ Library v3

Datasets:

tim8 - Backbone Dihedral Angles of Triose Phosphate Isomerase
wind - Saturna Island wind directions

On CRAN:

cpp

4.81 score 3 stars 1 packages 72 scripts 660 downloads 2 mentions 49 exports 48 dependencies

Last updated from:4e2fa4aa31. Checks:15 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	145
linux-devel-x86_64	OK	175
source / vignettes	OK	197
linux-release-arm64	OK	184
linux-release-x86_64	OK	192
macos-release-arm64	OK	214
macos-release-x86_64	OK	238
macos-oldrel-arm64	OK	272
macos-oldrel-x86_64	OK	364
windows-devel-arm64	OK	403
windows-devel-x86_64	OK	216
windows-release-arm64	OK	415
windows-release-x86_64	OK	179
windows-oldrel-x86_64	OK	173
wasm-release	OK	126

Exports:add_burnin_thin angmcmc bestcriterion bestmodel circ_cor circ_varcor_model contour_model d_fitted DIC dvm dvmcos dvmcosmix dvmmix dvmsin dvmsinmix dwnorm dwnorm2 dwnorm2mix dwnormmix extractsamples fit_angmix fit_incremental_angmix fit_vmcosmix fit_vmmix fit_vmsinmix fit_wnorm2mix fit_wnormmix fix_label is.angmcmc latent_allocation lpdtrace minuspi_to_pi paramtrace pointest r_fitted rvm rvmcos rvmcosmix rvmmix rvmsin rvmsinmix rwnorm rwnorm2 rwnorm2mix rwnormmix select_chains surface_model vm2_mle zero_to_2pi

Dependencies:abind backports bridgesampling Brobdingnag checkmate cli coda codetools combinat digest distributional farver future future.apply generics globals glue gtools label.switching labeling lattice lifecycle listenv loo lpSolve magrittr Matrix matrixStats mvtnorm numDeriv parallelly pillar pkgconfig posterior qrng R6 RColorBrewer Rcpp RcppArmadillo rlang scales stringi stringr tensorA tibble utf8 vctrs viridisLite

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Add (extra) burnin and thin to angmcmc object after original run	add_burnin_thin
Create an mcmc.list object from an angmcmc object	as.mcmc.list.angmcmc
'BAMBI': An R package for Bivariate Angular Mixture Models	BAMBI
Convenience function for extracting angmcmc object, and the value of the model selection criterion corresponding to the best fitted model in stepwise fits	bestcriterion bestmodel
Log Marginal Likelihood via Bridge Sampling for angmcmc objects	bridge_sampler.angmcmc
Sample circular correlation coefficients	circ_cor
Analytic circular variances and correlations for bivariate angular models	circ_varcor_model
Contourplot for bivariate angular mixture model densities	contour_model
Contour plot for angmcmc objects with bivariate data	contour.angmcmc
Density and random deviates from an angmcmc object	d_fitted r_fitted
Density plots for angmcmc objects	densityplot.angmcmc
Deviance Information Criterion (DIC) for angmcmc objects	DIC
Extract MCMC samples for parameters from an angmcmc object	extractsamples
Fitting Bivariate and univariate angular mixture models	fit_angmix
Stepwise fitting of angular mixture models with incremental component sizes and optimum model selection	fit_incremental_angmix
Fitting bivariate von Mises cosine model mixtures using MCMC	fit_vmcosmix
Fitting univariate von Mises mixtures using MCMC	fit_vmmix
Fitting bivariate von Mises sine model mixtures using MCMC	fit_vmsinmix
Fitting bivariate wrapped normal model mixtures using MCMC	fit_wnorm2mix
Fitting univariate wrapped normal mixtures using MCMC	fit_wnormmix
Fix label switching in angmcmc objects	fix_label
Angular MCMC ('angmcmc') Object	angmcmc is.angmcmc
Finding latent allocation (component indicators) from an angmcmc object	latent_allocation
Extract Log-Likelihood from angmcmc objects	logLik.angmcmc
Leave-one-out cross-validation (LOO) for angmcmc objects	loo.angmcmc
Trace and autocorrelation plots of log posterior density or log likelihood from an angmcmc object	lpdtrace
Trace plot for parameters from an angmcmc object	paramtrace
Summary plots for angmcmc objects	plot.angmcmc
Point estimates for parameters from an angmcmc object	pointest
Quantile estimates for parameters from an angmcmc object	quantile.angmcmc
The univariate von Mises distribution	dvm rvm
The bivariate von Mises cosine model	dvmcos rvmcos
The bivariate von Mises cosine model mixtures	dvmcosmix rvmcosmix
The univariate von Mises mixtures	dvmmix rvmmix
The bivariate von Mises sine model	dvmsin rvmsin
The bivariate von Mises sine model mixtures	dvmsinmix rvmsinmix
The univariate Wrapped Normal distribution	dwnorm rwnorm
The bivariate Wrapped Normal distribution	dwnorm2 rwnorm2
The bivariate Wrapped Normal mixtures	dwnorm2mix rwnorm2mix
The univariate Wrapped Normal mixtures	dwnormmix rwnormmix
Select chains from angmcmc objects	select_chains
Summary statistics for parameters from an angmcmc object	summary.angmcmc
Surface for bivariate angular mixture model densities	surface_model
Backbone Dihedral Angles of Triose Phosphate Isomerase (8TIM)	tim8
Maximum likelihood estimation of bivariate von Mises parameters	vm2_mle
Watanabe-Akaike Information Criterion (WAIC) for angmcmc objects	waic.angmcmc
Saturna Island wind directions	wind
Wrap angles into '[-pi, pi]' or '[0, 2*pi]'	minuspi_to_pi zero_to_2pi